So my pets were dangerously low on health, so i went to the traveling merchant in Astryl's tranquility.

HOWEVER, when I moved away, only my first party pet was fully healed. the rest had been healed a bit, but not all the way. The bottom of my screen said that the whole party had been healed. (Unfortunately, i couldn't screenshot it because the site crashed for me not too long after that, and so the message is no longer in he log...The pets, however, are still not healed.)

I also noticed that when I looked at the price for healing, ti was 2k and something (didn't get exact cost) and when they were "healed" it said I only paid 1.8k. I can't confirm which I actually paid, because i didn't check ow much money i had before it happened because, well, i didn't totally expect problems =/

If you need to know, the pets were all below 50% health (m 1st pet was probably closer to below 20%). They ended up:
Pet 1(lvl60): 100%
Pet 2(lvl60): ~90%
pet 3(lvl48): ~79%

I think you just made me figure out what causes this.

The "my other pets healed a little bit" makes me think that the script that auto heals pet began to run as you healed your pets.

Coincidentally, while your pets were "regenerating", you healed them to full. But by the time it got to your other 2 pets it then reset their health back down from 100%.

The pets that were not healed... do they have a higher pet ID number than the pet that was healed?

@Krinadon,

Yeah. The pet that was healed happens to be my starter, and the others are recently generated puffs. so, they definitely should have higher IDs.